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--- |
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tags: |
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- spacy |
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- token-classification |
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language: |
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- en |
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model-index: |
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- name: en_sdoh_roberta_cui |
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results: |
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- task: |
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name: NER |
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type: token-classification |
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metrics: |
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- name: NER Precision |
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type: precision |
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value: 0.8016997167 |
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- name: NER Recall |
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type: recall |
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value: 0.7526595745 |
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- name: NER F Score |
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type: f_score |
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value: 0.7764060357 |
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widget: |
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- text: She lives in Oakland with her bf and commutes to work by bus. |
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example_title: SDOH NER example 1 |
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- text: "There are some\_logistical barriers, as she lives in Oakland and works at the VA, commuting by\_bus" |
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example_title: SDOH NER example 2 |
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- text: "I have also been very\_moody/tearful and generally depressed\_on a daily basis" |
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example_title: SDOH NER example 3 |
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- text: >- |
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Patient is a 85 yo widow, who lives in section 8 housing. She is |
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occasionally visited by her daughter and grandchildren. |
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example_title: SDOH NER example 4 |
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license: mit |
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--- |
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RoBERTA based Social determinants of health NER with a standard ontology extension interface (SNOMED_CT and CUI) |
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| Feature | Description | |
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| --- | --- | |
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| **Name** | `en_sdoh_roberta_cui` | |
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| **Version** | `0.0.0` | |
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| **spaCy** | `>=3.2.1,<3.3.0` | |
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| **Default Pipeline** | `transformer`, `ner`, `sdoh_cui` | |
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| **Components** | `transformer`, `ner`, `sdoh_cui` | |
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| **Vectors** | 0 keys, 0 unique vectors (0 dimensions) | |
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| **Sources** | n/a | |
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| **License** | n/a | |
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| **Author** | [Dima Lituiev](mailto:d.lituiev@gmail.com) | |
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| **Reference** | [Automatic Extraction of Social Determinants of Health from Medical Notes of Chronic Lower Back Pain Patients](https://www.medrxiv.org/content/10.1101/2022.03.04.22271541v1) | |
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### Label Scheme |
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<details> |
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<summary>View label scheme (52 labels for 1 components)</summary> |
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| Component | Labels | |
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| --- | --- | |
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| **`ner`** | `Anxiety: GAD`, `Anxiety: Generalized Anxiety Disorder`, `Anxiety: Level of anxiety`, `Anxiety: NA`, `Anxiety: Signs and symptoms of anxiety`, `Anxiety: family hx: Anxiety state`, `Anxiety: hx of anxiety state`, `Depression: Family hx: Depression`, `Depression: Major depressive disorder`, `Depression: NA`, `Depression: PHQ`, `Depression: Symptoms of depression`, `Depression: hx of Depression`, `Financial_strain: Financial problem`, `Financial_strain: Financially secure`, `Financial_strain: NA`, `Financial_strain: Unable to afford medication`, `Food: Able to obtain food`, `Food: Fruit and vegetable intake`, `Food: NA`, `Housing: Homeless`, `Housing: Housing unsuited to needs`, `Housing: Marginally housed`, `Housing: NA`, `Housing: Stably housed`, `Housing: Subsidized housing`, `Housing: lives in facility`, `Insurance_status: Inadequate healthcare resources`, `Insurance_status: NA`, `Marital_or_partnership_status: Divorced`, `Marital_or_partnership_status: Engaged to be married`, `Marital_or_partnership_status: Married`, `Marital_or_partnership_status: NA`, `Marital_or_partnership_status: Partner`, `Marital_or_partnership_status: Partner relationship problem`, `Marital_or_partnership_status: Separated`, `Marital_or_partnership_status: Single person`, `Marital_or_partnership_status: Widowed`, `Social_isolation: At risk for loneliness`, `Social_isolation: Has social support`, `Social_isolation: Lives alone`, `Social_isolation: Lives with`, `Social_isolation: NA`, `Social_isolation: Personal relationship breakdown`, `Social_isolation: Social Isolation`, `Transportation: Has access to a car`, `Transportation: Has access to public transport vehicle`, `Transportation: NA`, `Transportation: Transportation problems`, `pain_and_disability: NA`, `pain_and_disability: Pain intensity rating scale, current`, `pain_and_disability: Pain intensity rating scale, worst` | |
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</details> |
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### Accuracy |
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| Type | Score | |
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| --- | --- | |
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| `ENTS_F` | 77.64 | |
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| `ENTS_P` | 80.17 | |
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| `ENTS_R` | 75.27 | |
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| `TRANSFORMER_LOSS` | 37708138.10 | |
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| `NER_LOSS` | 1444086.80 | |
